Multiple protonation states in ligand-free SARS-CoV-2 main protease revealed by large-scale quantum molecular dynamics simulations

Junichi Ono, Uika Koshimizu, Yoshifumi Fukunishi, Hiromi Nakai*

*この研究の対応する著者

研究成果: Article査読

抄録

The main protease (Mpro) in severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) catalyzes the cleavage of polyproteins for viral replication. Here, large-scale quantum molecular dynamics and metadynamics simulations for ligand-free Mpro were performed, where all the atoms were treated quantum-mechanically, focusing on elucidation of the controversial active-site protonation state. The simulations clarified that the interconverting multiple protonation states exist in unliganded Mpro, and the catalytically relevant ion-pair state is more stable than the neutral state, which is consistent with neutron crystallography. The results highlight the importance of the ion-pair state for repurposing or discovering antiviral drugs that target Mpro.

本文言語English
論文番号139489
ジャーナルChemical Physics Letters
794
DOI
出版ステータスPublished - 2022 5月

ASJC Scopus subject areas

  • 物理学および天文学(全般)
  • 物理化学および理論化学

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